introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

8 rows where transcript_id = 34724186

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
195654115 GT-AG 0 1.000000099473604e-05 364 rna-XM_010540648.2 34724186 1 5491011 5491374 Tarenaya hassleriana 28532 ATG|GTAATTGAGT...ATATTCGTGACA/TTCGGTCTAAAT...TGCAG|GGC 1 1 25.154
195654116 GT-AG 0 1.000000099473604e-05 318 rna-XM_010540648.2 34724186 2 5490302 5490619 Tarenaya hassleriana 28532 AAG|GTGATGGTCA...GATTTCTCAGCT/TGATTTCTCAGC...TGCAG|GCA 2 1 37.845
195654117 GT-AG 0 1.000000099473604e-05 114 rna-XM_010540648.2 34724186 3 5489081 5489194 Tarenaya hassleriana 28532 GAG|GTATGAAGAT...CCTTTGTTGATT/CCTTTGTTGATT...TTTAG|ATG 2 1 73.775
195654118 GT-AG 0 0.0039175569481549 157 rna-XM_010540648.2 34724186 4 5488794 5488950 Tarenaya hassleriana 28532 CAA|GTATGCCAAT...TTTGCCTAAGTT/ATTTGCCTAAGT...TTCAG|GGC 0 1 77.994
195654119 GT-AG 0 0.0032865041769751 236 rna-XM_010540648.2 34724186 5 5488322 5488557 Tarenaya hassleriana 28532 CAG|GTACGCCTTT...TTTTCTTTGATC/TTTTCTTTGATC...CGCAG|GGC 2 1 85.654
195654120 GT-AG 0 0.0005280940185123 127 rna-XM_010540648.2 34724186 6 5488059 5488185 Tarenaya hassleriana 28532 AAA|GTACTGTTAA...GAAATTTTGACC/GAAATTTTGACC...CACAG|GGA 0 1 90.068
195654121 GT-AG 0 1.000000099473604e-05 186 rna-XM_010540648.2 34724186 7 5487796 5487981 Tarenaya hassleriana 28532 ACG|GTCATTTCCT...AATGTCGTAATT/AATGTCGTAATT...TTCAG|GCC 2 1 92.567
195654122 GT-AG 0 0.0001162098478545 311 rna-XM_010540648.2 34724186 8 5487378 5487688 Tarenaya hassleriana 28532 AAG|GTAACTACTA...GGGTTTTTTTCC/AATATGATAACC...TGCAG|GTC 1 1 96.04

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);